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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $species_info = array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ) $local_species = 'cre' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $species_info = array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ) $local_species = 'cre' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $species_info = array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ) $local_species = 'car' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $species_info = array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ) $local_species = 'car' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $species_info = array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ) $local_species = 'pco' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $species_info = array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ) $local_species = 'pco' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $species_info = array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ) $local_species = 'ppe' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $species_info = array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ) $local_species = 'ppe' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $species_info = array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ) $local_species = 'spa' $disabled = '' $selected = '' $num_hits = (int) 0include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $species_info = array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ) $local_species = 'spa' $disabled = '' $selected = '' $num_hits = (int) 0
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ), 'gf_id' => 'HOM05D001044', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001044' ), 'data_identifier' => 'HOM05D001044', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001044', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p01000' => 'bna', 'A04p10190' => 'bna', 'A07p12660' => 'bna', 'A07p13580' => 'bna', 'A08p06770' => 'bna', 'A08p27040' => 'bna', 'A09p14130' => 'bna', 'A09p14940' => 'bna', 'Aa31LG2G1200' => 'aar', 'Aa31LG7G8980' => 'aar', 'Aa31LG9G17820' => 'aar', 'Aa31LG9G4070' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.670' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1872' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4470' => 'aag', 'Actinidia04223' => 'ach', 'Actinidia04613' => 'ach', 'Actinidia04624' => 'ach', 'Actinidia11388' => 'ach', 'Actinidia11389' => 'ach', 'Actinidia13670' => 'ach', 'Actinidia14863' => 'ach', 'Actinidia15870' => 'ach', 'Actinidia16627' => 'ach', 'Actinidia34781' => 'ach', 'Actinidia38385' => 'ach', 'Actinidia38901' => 'ach', 'Actinidia39947' => 'ach', 'Ah.12g052130' => 'amhyb', 'AL1G39780' => 'aly', 'AL2G10880' => 'aly', 'AL2G27570' => 'aly', 'AL7G43000' => 'aly', 'AL7G45260' => 'aly', 'Aqoxy2G03830' => 'aox', 'Aqoxy2G04066' => 'aox', 'Aqoxy3G00348' => 'aox', 'Aqoxy5G04043' => 'aox', 'arahy.Tifrunner.gnm1.ann1.39LB0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5996BE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AB2IG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZ52LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE7A4D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LE8ECZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MJZV2I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U47N90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UC30TE' => 'arhy', 'AT1G25520' => 'ath', 'AT1G64150' => 'ath', 'AT1G68650' => 'ath', 'AT4G13590' => 'ath', 'AT5G36290' => 'ath', 'ATR0564G438' => 'atr', 'ATR0636G002' => 'atr', 'ATR0709G023' => 'atr', 'ATR0787G194' => 'atr', 'ATR1147G024' => 'atr', 'Atru.chr11.1332' => 'acertr', 'Atru.chr12.1793' => 'acertr', 'Atru.chr4.1812' => 'acertr', 'Atru.chr9.2079' => 'acertr', 'AUR62002908' => 'cqu', 'AUR62006283' => 'cqu', 'AUR62010778' => 'cqu', 'AUR62019634' => 'cqu', 'AUR62019635' => 'cqu', 'AUR62019777' => 'cqu', 'AUR62035267' => 'cqu', 'AUR62035315' => 'cqu', 'BcaB02g08037' => 'bca', 'BcaB03g12088' => 'bca', 'BcaB03g14050' => 'bca', 'BcaB04g17671' => 'bca', 'BcaB06g26584' => 'bca', 'BcaB06g27030' => 'bca', 'BcaB07g31440' => 'bca', 'BcaB07g31441' => 'bca', 'BcaC01g01714' => 'bca', 'BcaC01g03348' => 'bca', 'BcaC01g06819' => 'bca', 'BcaC02g09519' => 'bca', 'BcaC03g17024' => 'bca', 'BcaC04g22536' => 'bca', 'BcaC05g26445' => 'bca', 'BcaC06g35192' => 'bca', 'BcaC07g37347' => 'bca', 'BcaNung05709' => 'bca', 'BolC2t11023H' => 'bol', 'BolC3t16134H' => 'bol', 'BolC3t19584H' => 'bol', 'BolC4t25948H' => 'bol', 'BolC5t31223H' => 'bol', 'BolC7t42391H' => 'bol', 'BolC8t47642H' => 'bol', 'BolC9t54600H' => 'bol', 'BolC9t54703H' => 'bol', 'BraA04t15817Z' => 'bra', 'BraA04t16686Z' => 'bra', 'BraA07t29044Z' => 'bra', 'BraA08t32695Z' => 'bra', 'BraA08t34649Z' => 'bra', 'BraA09t37061Z' => 'bra', 'BraA09t37139Z' => 'bra', 'BraA09t39451Z' => 'bra', 'C02p49370' => 'bna', 'C03p38610' => 'bna', 'C03p45650' => 'bna', 'C03p72860' => 'bna', 'C04p43670' => 'bna', 'C08p07910' => 'bna', 'C08p15320' => 'bna', 'C08p19380' => 'bna', 'C09p18060' => 'bna', 'CAN.G1138.16' => 'can', 'CAN.G1177.13' => 'can', 'CAN.G144.2' => 'can', 'CAN.G1588.10' => 'can', 'CAN.G21.26' => 'can', 'CAN.G532.67' => 'can', 'CAN.G61.28' => 'can', 'CAN.G674.39' => 'can', 'CANSAT35G0786' => 'cansat', 'CANSAT54G0917' => 'cansat', 'CANSAT64G1498' => 'cansat', 'CANSAT78G1342' => 'cansat', 'CARHR025940' => 'chi', 'CARHR046790' => 'chi', 'CARHR061460' => 'chi', 'CARHR216450' => 'chi', 'CARHR219230' => 'chi', 'Carub.0001s2496' => 'cru', 'Carub.0002s0066' => 'cru', 'Carub.0002s1519' => 'cru', 'Carub.0007s2895' => 'cru', 'Carub.0007s3194' => 'cru', 'Ca_07976_v3' => 'car', 'Ca_11192_v3' => 'car', 'Ca_11819_v3' => 'car', 'CBR_g12688' => 'cbr', 'CBR_g36743' => 'cbr', 'CBR_g49428' => 'cbr', 'Cc03_g07100' => 'ccan', 'Cc07_g08950' => 'ccan', 'Cc08_g15530' => 'ccan', 'Cc09_g03560' => 'ccan', 'Cc11_g10470' => 'ccan', 'CDE01G0490' => 'cde', 'CDE02G3263' => 'cde', 'CDE05G0724' => 'cde', 'CDE05G0882' => 'cde', 'CDE05G3401' => 'cde', 'CDE08G1610' => 'cde', 'Cfa012268' => 'cfa', 'Cfa014870' => 'cfa', 'Cfa026150' => 'cfa', 'Ciclev10005326m.g' => 'ccl', 'Ciclev10012397m.g' => 'ccl', 'Ciclev10020858m.g' => 'ccl', 'Ciclev10032658m.g' => 'ccl', 'CiPaw.01G093000' => 'cil', 'CiPaw.01G205300' => 'cil', 'CiPaw.11G126800' => 'cil', 'CiPaw.15G004500' => 'cil', 'CiPaw.15G119900' => 'cil', 'CiPaw.16G004000' => 'cil', 'ClCG01G002130' => 'cla', 'ClCG04G005850' => 'cla', 'ClCG05G003650' => 'cla', 'ClCG08G005110' => 'cla', 'ClCG11G010760' => 'cla', 'COL.COLO4_05721' => 'col', 'COL.COLO4_07883' => 'col', 'COL.COLO4_08333' => 'col', 'COL.COLO4_27386' => 'col', 'Cpa.g.sc1.207' => 'cpa', 'Cpa.g.sc321.3' => 'cpa', 'Cpa.g.sc39.1' => 'cpa', 'Cpa.g.sc59.78' => 'cpa', 'Cpa.g.sc59.79' => 'cpa', 'Cre02.g084350' => 'cre', 'Cre16.g660000' => 'cre', 'Cre16.g660050' => 'cre', 'Cre17.g731300' => 'cre', 'CsaV3_2G009660' => 'csa', 'CsaV3_3G011360' => 'csa', 'CsaV3_5G002250' => 'csa', 'CsaV3_6G003330' => 'csa', 'CsaV3_7G025630' => 'csa', 'CSS0000631' => 'camsi', 'CSS0002959' => 'camsi', 'CSS0007646' => 'camsi', 'CSS0008712' => 'camsi', 'CSS0010006' => 'camsi', 'CSS0016478' => 'camsi', 'CSS0027074' => 'camsi', 'CSS0032911' => 'camsi', 'CSS0043394' => 'camsi', 'CSS0043709' => 'camsi', 'DCAR_002280' => 'dca', 'DCAR_008527' => 'dca', 'DCAR_023853' => 'dca', 'DCAR_030076' => 'dca', 'Dinv04488' => 'din', 'Dinv06979' => 'din', 'Dinv21119' => 'din', 'Dinv29108' => 'din', 'Dinv38289' => 'din', 'Dinv38884' => 'din', 'Duzib068G0240' => 'dzi', 'Duzib106G1207' => 'dzi', 'Duzib151G0345' => 'dzi', 'Duzib177G0876' => 'dzi', 'Duzib205G1268' => 'dzi', 'Duzib248G0223' => 'dzi', 'Duzib251G0949' => 'dzi', 'ECA233G1121' => 'eca', 'ECA234G3415' => 'eca', 'EL10Ac3g06775' => 'bvu', 'EL10Ac4g09975' => 'bvu', 'EL10Ac5g12855' => 'bvu', 'EL10Ac6g14462' => 'bvu', 'Eucgr.B03039' => 'egr', 'Eucgr.D01791' => 'egr', 'Eucgr.G02342' => 'egr', 'Eucgr.H01386' => 'egr', 'Eucgr.H02871' => 'egr', 'Eucgr.J01473' => 'egr', 'Eucgr.J01475' => 'egr', 'FAN02G2451' => 'fan', 'FAN04G0603' => 'fan', 'FAN04G1718' => 'fan', 'FAN05G0602' => 'fan', 'FAN07G0105' => 'fan', 'FAN07G1012' => 'fan', 'FAN08G0452' => 'fan', 'FAN12G0469' => 'fan', 'FAN12G1460' => 'fan', 'FAN13G0499' => 'fan', 'FAN13G2515' => 'fan', 'FAN14G0902' => 'fan', 'FAN17G1947' => 'fan', 'FAN17G3041' => 'fan', 'FAN18G2024' => 'fan', 'FAN22G0038' => 'fan', 'FAN22G1298' => 'fan', 'FvH4_4g05550' => 'fve', 'FvH4_4g27780' => 'fve', 'FvH4_5g03670' => 'fve', 'FvH4_6g00560' => 'fve', 'Glyma.01G223500' => 'gma', 'Glyma.09G251100' => 'gma', 'Glyma.10G127000' => 'gma', 'Glyma.10G276300' => 'gma', 'Glyma.11G020001' => 'gma', 'Glyma.18G241400' => 'gma', 'Glyma.20G113400' => 'gma', 'Gohir.A02G027600' => 'ghi', 'Gohir.A11G304600' => 'ghi', 'Gohir.A12G232500' => 'ghi', 'Gohir.A13G053498' => 'ghi', 'Gohir.A13G053512' => 'ghi', 'Gohir.D02G035500' => 'ghi', 'Gohir.D10G124101' => 'ghi', 'Gohir.D11G320000' => 'ghi', 'Gohir.D12G234900' => 'ghi', 'Gohir.D13G070500' => 'ghi', 'Gohir.D13G070600' => 'ghi', 'Gorai.005G039200' => 'gra', 'Gorai.007G350200' => 'gra', 'Gorai.008G251200' => 'gra', 'Gorai.011G137100' => 'gra', 'Gorai.013G080700' => 'gra', 'Gorai.013G080800' => 'gra', 'GSVIVG01011934001' => 'vvi', 'GSVIVG01019117001' => 'vvi', 'GSVIVG01019449001' => 'vvi', 'GSVIVG01027223001' => 'vvi', 'GSVIVG01029035001' => 'vvi', 'HanXRQChr08g0214301' => 'han', 'HanXRQChr14g0434281' => 'han', 'HanXRQChr16g0512051' => 'han', 'HanXRQChr16g0520251' => 'han', 'HanXRQChr16g0529591' => 'han', 'HanXRQChr17g0533941' => 'han', 'Haze_04546' => 'cav', 'Haze_08717' => 'cav', 'Haze_11544' => 'cav', 'Haze_17451' => 'cav', 'Haze_21307' => 'cav', 'Hma1.2p1_0030F.1_g018340' => 'hma', 'Hma1.2p1_0216F.1_g091280' => 'hma', 'HPP92_008794' => 'vpl', 'HPP92_008897' => 'vpl', 'HPP92_020207' => 'vpl', 'HPP92_020218' => 'vpl', 'Hund07341' => 'sun', 'Hund14251' => 'sun', 'Hund19257' => 'sun', 'Hund21898' => 'sun', 'Hund25091' => 'sun', 'Lalb_Chr01g0011121' => 'lal', 'Lalb_Chr01g0020341' => 'lal', 'Lalb_Chr02g0146111' => 'lal', 'Lalb_Chr03g0036761' => 'lal', 'Lalb_Chr03g0036771' => 'lal', 'Lalb_Chr03g0036781' => 'lal', 'Lalb_Chr06g0166181' => 'lal', 'Lalb_Chr09g0320731' => 'lal', 'Lalb_Chr19g0127601' => 'lal', 'Lalb_Chr19g0128661' => 'lal', 'Lj1A1227G89' => 'lonja', 'Lj1g0004654' => 'lja', 'Lj2A175T71' => 'lonja', 'Lj3A1018T63' => 'lonja', 'Lj5g0018528' => 'lja', 'Lj6C762T7' => 'lonja', 'Lj6C764T4' => 'lonja', 'Lj6g0004400' => 'lja', 'LjContig00312_ERROPOS870357g0011954' => 'lja', 'Lju414A4T45' => 'lonja', 'Lsat_1_v5_gn_1_127740' => 'lsa', 'Lsat_1_v5_gn_2_106141' => 'lsa', 'Lsat_1_v5_gn_2_41161' => 'lsa', 'Lsat_1_v5_gn_3_9840' => 'lsa', 'Lsat_1_v5_gn_4_18960' => 'lsa', 'Lsat_1_v5_gn_5_162860' => 'lsa', 'Lsat_1_v5_gn_8_2141' => 'lsa', 'Lsat_1_v5_gn_8_38801' => 'lsa', 'Lsat_1_v5_gn_8_55881' => 'lsa', 'Lsat_1_v5_gn_9_48781' => 'lsa', 'Manes.01G108600' => 'mes', 'Manes.02G014750' => 'mes', 'Manes.03G154600' => 'mes', 'Manes.12G006250' => 'mes', 'Manes.14G098900' => 'mes', 'Manes.15G049500' => 'mes', 'Mapoly0030s0088' => 'mpo', 'Mapoly0032s0011' => 'mpo', 'Mapoly0091s0019' => 'mpo', 'Mapoly0093s0014' => 'mpo', 'MBI06_g14407_MAGBIO' => 'mbi', 'MBI07_g08929_MAGBIO' => 'mbi', 'MBI12_g36306_MAGBIO' => 'mbi', 'MCO02G237' => 'mco', 'MCO03G382' => 'mco', 'MCO05G681' => 'mco', 'MCO06G285' => 'mco', 'MD04G1244200' => 'mdo', 'MD06G1096200' => 'mdo', 'MD12G1260000' => 'mdo', 'MD13G1045000' => 'mdo', 'MD13G1229100' => 'mdo', 'MD13G1229200' => 'mdo', 'MD13G1229400' => 'mdo', 'MD16G1046300' => 'mdo', 'MD16G1235000' => 'mdo', 'MD16G1235100' => 'mdo', 'Medtr1g046730' => 'mtr', 'Medtr1g111390' => 'mtr', 'Medtr5g009810' => 'mtr', 'Medtr7g079850' => 'mtr', 'MELO3C005729.2' => 'cme', 'MELO3C006344.2' => 'cme', 'MELO3C011548.2' => 'cme', 'Migut.E00316' => 'egut', 'Migut.E01805' => 'egut', 'Migut.F01875' => 'egut', 'Migut.I00572' => 'egut', 'Migut.L01090' => 'egut', 'Migut.L01391' => 'egut', 'MSTRG.13509' => 'ama', 'MSTRG.2253' => 'ama', 'MSTRG.22867' => 'ama', 'MSTRG.27387' => 'ama', 'MSTRG.327' => 'ama', 'MSTRG.8214' => 'ama', 'MSTRG.9360' => 'ama', 'Nitab4.5_0000672g0130' => 'nta', 'Nitab4.5_0000966g0020' => 'nta', 'Nitab4.5_0001308g0140' => 'nta', 'Nitab4.5_0001653g0130' => 'nta', 'Nitab4.5_0002182g0060' => 'nta', 'Nitab4.5_0002233g0040' => 'nta', 'Nitab4.5_0005194g0040' => 'nta', 'Nitab4.5_0006595g0020' => 'nta', 'Nitab4.5_0006812g0050' => 'nta', 'Nitab4.5_0006883g0020' => 'nta', 'Nitab4.5_0011409g0010' => 'nta', 'Nn1g01757' => 'nnu', 'Nn1g03092' => 'nnu', 'Nn1g09810' => 'nnu', 'Nn4g23760' => 'nnu', 'Oeu010159.1' => 'oeu', 'Oeu010775.1' => 'oeu', 'Oeu023164.2' => 'oeu', 'Oeu023528.2' => 'oeu', 'Oeu027118.1' => 'oeu', 'Oeu033131.1' => 'oeu', 'Oeu034740.1' => 'oeu', 'Oeu040499.1' => 'oeu', 'Oeu041891.1' => 'oeu', 'Oeu053115.1' => 'oeu', 'Os01g0221700' => 'osa', 'Os08g0433100' => 'osa', 'Os08g0528500' => 'osa', 'Os11g0472500' => 'osa', 'Os11g0544500' => 'osa', 'Peaxi162Scf00047g01526' => 'pax', 'Peaxi162Scf00074g01514' => 'pax', 'Peaxi162Scf00253g00073' => 'pax', 'Peaxi162Scf00344g01310' => 'pax', 'Peaxi162Scf00380g00710' => 'pax', 'PGR031G0274' => 'pgr', 'PGR031G0917' => 'pgr', 'PGR102G1529' => 'pgr', 'PGR142G4335' => 'pgr', 'PGSC0003DMG400000829' => 'stu', 'PGSC0003DMG400011590' => 'stu', 'PGSC0003DMG400012171' => 'stu', 'PGSC0003DMG400016166' => 'stu', 'Phvul.002G161500' => 'pvu', 'Phvul.007G025300' => 'pvu', 'Phvul.007G237700' => 'pvu', 'Phvul.008G054700' => 'pvu', 'Potri.001G053600' => 'ptr', 'Potri.003G134300' => 'ptr', 'Potri.003G174600' => 'ptr', 'Potri.008G117900' => 'ptr', 'Potri.010G128400' => 'ptr', 'Potri.013G086700' => 'ptr', 'Potri.019G053400' => 'ptr', 'Potri.019G116100' => 'ptr', 'Pp3c24_6730' => 'ppa', 'Pp3c2_28570' => 'ppa', 'Pp3c7_26970' => 'ppa', 'Pp3c7_800' => 'ppa', 'Pp3c8_14760' => 'ppa', 'Pp3c9_26170' => 'ppa', 'PRCOL_00001016' => 'pco', 'PRCOL_00003173' => 'pco', 'PRCOL_00005490' => 'pco', 'PRCOL_00006182' => 'pco', 'Prupe.1G057500' => 'ppe', 'Prupe.1G306900' => 'ppe', 'Prupe.5G110800' => 'ppe', 'Prupe.6G360700' => 'ppe', 'Psat2g184200' => 'psa', 'Psat3g138560' => 'psa', 'Psat6g047320' => 'psa', 'Psat6g127160' => 'psa', 'Psat6g229680' => 'psa', 'PSO017G2931' => 'pso', 'PSO017G6432' => 'pso', 'PSO017G7358' => 'pso', 'PSO063G3895' => 'pso', 'PSO063G4777' => 'pso', 'PSO170G5857' => 'pso', 'PSO478G3555' => 'pso', 'PSO675G0244' => 'pso', 'QL01p044656' => 'qlo', 'QL01p044663' => 'qlo', 'QL01p048543' => 'qlo', 'QL02p032522' => 'qlo', 'QL06p022880' => 'qlo', 'RcHm_v2.0_Chr3g0447951' => 'rch', 'RcHm_v2.0_Chr4g0396661' => 'rch', 'RcHm_v2.0_Chr4g0435641' => 'rch', 'RcHm_v2.0_Chr7g0196061' => 'rch', 'Rhsim02G0051000' => 'rsi', 'Rhsim02G0052200' => 'rsi', 'Rhsim02G0237500' => 'rsi', 'Rhsim09G0111000' => 'rsi', 'Rhsim09G0111100' => 'rsi', 'Rhsim09G0129800' => 'rsi', 'Sabra01G0037800' => 'sbr', 'Sabra03G0096700' => 'sbr', 'Sabra03G0128100' => 'sbr', 'Sabra08G0089400' => 'sbr', 'Sabra10G0097600' => 'sbr', 'Sabra13G0077200' => 'sbr', 'SalBow1G6469' => 'sbo', 'SalBow1G6933' => 'sbo', 'SalBow8G1991' => 'sbo', 'SalBow8G2013' => 'sbo', 'SalBow8G2850' => 'sbo', 'SalBow8G2938' => 'sbo', 'Sc01g0009990' => 'sci', 'Sc09g0001500' => 'sci', 'Sc11g0003180' => 'sci', 'Sc13g0002900' => 'sci', 'Sed0003335' => 'sed', 'Sed0015668' => 'sed', 'Sed0015881' => 'sed', 'Sed0016855' => 'sed', 'Sed0017076' => 'sed', 'Sed0025176' => 'sed', 'Sed0026915' => 'sed', 'SEGI_00739' => 'sgi', 'SEGI_01168' => 'sgi', 'SEGI_08702' => 'sgi', 'SEGI_17978' => 'sgi', 'SEGI_20026' => 'sgi', 'SEGI_25262' => 'sgi', 'SEGI_34114' => 'sgi', 'SEGI_34915' => 'sgi', 'SEGI_35455' => 'sgi', 'SEGI_37828' => 'sgi', 'SGA_v2.0_scaffold124G33582' => 'sas', 'SGA_v2.0_scaffold163G37966' => 'sas', 'SGA_v2.0_scaffold170G38747' => 'sas', 'SGA_v2.0_scaffold40G15656' => 'sas', 'SGA_v2.0_scaffold57G20200' => 'sas', 'SGA_v2.0_scaffold62G21506' => 'sas', 'SMO119G0381' => 'smo', 'SMO367G1059' => 'smo', 'Solyc05g009690.3' => 'sly', 'Solyc08g081770.3' => 'sly', 'Solyc09g015440.1' => 'sly', 'Solyc09g091240.4' => 'sly', 'Solyc11g008890.2' => 'sly', 'Sopen05g005510' => 'spe', 'Sopen08g030070' => 'spe', 'Sopen09g009140' => 'spe', 'Sopen09g034210' => 'spe', 'Sopen11g004670' => 'spe', 'Sp1g22690' => 'spa', 'Sp2g00580' => 'spa', 'Sp5g23750' => 'spa', 'Sp7g05800' => 'spa', 'Sp7g11240' => 'spa', 'TAR362G1143' => 'tar', 'TAR365G1064' => 'tar', 'TAR371G0277' => 'tar', 'TAR371G0896' => 'tar', 'TAR622G0461' => 'tar', 'TAR629G0277' => 'tar', 'TAR629G2178' => 'tar', 'THA.LOC104804869' => 'tha', 'THA.LOC104805697' => 'tha', 'THA.LOC104808731' => 'tha', 'THA.LOC104809353' => 'tha', 'THA.LOC104821955' => 'tha', 'THA.LOC104823812' => 'tha', 'Thecc.02G359300' => 'tca', 'Thecc.03G289400' => 'tca', 'Thecc.04G214400' => 'tca', 'Thecc.05G199900' => 'tca', 'Thhalv10004689m.g' => 'esa', 'Thhalv10008674m.g' => 'esa', 'Thhalv10019088m.g' => 'esa', 'Thhalv10023558m.g' => 'esa', 'Thhalv10025564m.g' => 'esa', 'TPR.G11301' => 'tpr', 'TPR.G26291' => 'tpr', 'TPR.G30354' => 'tpr', 'TPR.G6643' => 'tpr', 'TWI09G0323' => 'twi', 'TWI18G0428' => 'twi', 'TWI31G0096' => 'twi', 'TWI36G0022' => 'twi', 'TWI60G0564' => 'twi', 'TWI75G0072' => 'twi', 'TWI79G1043' => 'twi', 'unitig_26.g9569' => 'ugi', 'unitig_62.g23718' => 'ugi', 'unitig_62.g23813' => 'ugi', 'unitig_749.g13504' => 'ugi', 'vmacro10407' => 'vma', 'vmacro10539' => 'vma', 'vmacro10540' => 'vma', 'vmacro11419' => 'vma', 'vmacro15499' => 'vma', 'VMungo0720G0833' => 'vmu', 'VMungo0720G2569' => 'vmu', 'VMungo1215G2119' => 'vmu', 'VMungo1383G1540' => 'vmu', 'Zm00001eb036320' => 'zma', 'Zm00001eb041600' => 'zma', 'Zm00001eb088390' => 'zma', 'Zm00001eb169910' => 'zma', 'Zm00001eb179600' => 'zma', 'Zm00001eb338890' => 'zma' ) $gf_id = 'HOM05D001044' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001044' ) $data_identifier = 'HOM05D001044' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 1, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 4, 'egr' => (int) 7, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 7, 'ghi' => (int) 11, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 10, 'lonja' => (int) 6, 'lja' => (int) 4, 'lsa' => (int) 10, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 11, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 6, 'pco' => (int) 4, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 10, 'sas' => (int) 6, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb338890' $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